genome.fa.s9.2.7.7.80.10.50.1000.141.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  141  of  226  ( 27023 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47036123--47036260	70	2.0	71	81	4	163	54	14	2	28	1.55
47036268--47036337	19	3.5	19	88	9	104	57	11	0	31	1.34
47036270--47036335	21	3.2	21	93	6	109	59	12	0	28	1.33
47036172--47036371	101	1.9	102	89	6	305	55	14	1	29	1.46
47036189--47036408	101	2.1	101	85	5	282	55	13	0	30	1.44
47036495--47036532	3	13.3	3	83	10	53	0	36	0	63	0.95
47036491--47036555	14	4.8	13	85	9	69	0	33	0	66	0.92
47036720--47036749	5	6.0	5	100	0	60	20	60	20	0	1.37
47038350--47038411	18	3.4	18	72	12	63	64	3	3	29	1.25
47038628--47038667	19	2.1	20	86	9	57	27	2	2	67	1.16
47038628--47038797	9	18.4	9	63	17	55	30	2	2	64	1.18
47038631--47038733	20	5.4	19	71	9	66	29	3	1	65	1.21
47038639--47038715	28	2.7	28	77	2	73	29	2	2	64	1.20
47038674--47038812	29	5.0	27	72	12	95	28	2	2	66	1.18
47038827--47039034	86	2.4	87	84	4	269	36	7	18	37	1.80
47057720--47057752	15	2.2	15	94	0	57	27	12	30	30	1.92
47059497--47059568	20	3.6	20	74	12	67	29	2	1	66	1.14
47060022--47060071	13	4.0	13	78	14	52	20	2	6	72	1.16
47060075--47060107	15	2.2	15	94	0	57	24	0	12	63	1.28
47066866--47067695	44	18.8	44	62	14	156	31	20	23	24	1.98
47066816--47067670	132	6.5	132	92	0	1381	30	21	23	24	1.99
47068167--47068191	13	1.9	13	100	0	50	40	24	32	4	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47069232--47069290	27	2.1	28	84	9	77	18	3	1	76	1.02
47069458--47069500	4	10.5	4	80	14	52	30	0	2	67	1.03
47069958--47070019	18	3.3	18	75	16	72	20	8	1	69	1.23
47069958--47070034	38	2.0	38	100	0	154	20	7	2	68	1.27
47069978--47070034	13	4.5	12	73	18	53	19	7	3	70	1.26
47092639--47092670	2	16.0	2	100	0	64	50	0	0	50	1.00
47093382--47093427	24	2.1	24	84	15	64	17	28	0	54	1.43
47095095--47095155	29	2.0	31	81	6	72	37	1	1	59	1.17
47096039--47096096	25	2.4	25	94	5	102	0	25	25	48	1.52
47097396--47097423	2	14.0	2	100	0	56	50	0	0	50	1.00
47097574--47097600	2	13.5	2	100	0	54	51	0	0	48	1.00
47098013--47098241	109	2.1	106	88	4	334	34	17	16	32	1.92
47099078--47099526	114	4.0	114	83	5	594	23	22	26	27	2.00
47099177--47099500	105	3.0	105	87	4	423	23	21	25	29	1.99
47099094--47099520	219	1.9	220	85	4	588	23	22	26	27	2.00
47100084--47100149	14	4.5	14	78	10	60	28	0	31	39	1.57
47100130--47100186	14	4.2	14	82	6	64	19	0	43	36	1.51
47100141--47100176	7	5.1	7	96	0	63	16	0	55	27	1.42
47100149--47100187	12	3.1	12	88	7	51	15	0	51	33	1.44
47100156--47100203	19	2.4	19	79	6	51	20	0	45	33	1.52
47100149--47100202	26	2.1	26	82	0	63	20	0	46	33	1.51
47100422--47100475	21	2.6	21	72	21	51	50	1	5	42	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47100470--47100510	9	4.4	9	90	6	64	63	0	7	29	1.21
47100470--47100512	19	2.3	19	95	0	77	62	0	6	30	1.21
47100478--47100528	9	5.4	10	84	11	54	72	0	3	23	1.01
47100506--47100545	9	4.3	9	83	3	53	82	0	2	15	0.77
47100478--47100540	19	3.3	19	84	4	65	71	0	4	23	1.05
47100770--47101210	199	2.2	199	94	0	767	30	16	25	27	1.97
47101339--47101363	2	12.5	2	100	0	50	0	48	0	52	1.00
47103987--47104084	51	1.9	52	91	2	162	25	5	17	52	1.65
47104079--47104125	21	2.2	21	84	0	58	40	12	0	46	1.42
47104666--47104823	46	3.3	46	69	17	131	46	17	1	34	1.56
47104791--47104850	17	3.5	17	73	8	68	45	15	1	38	1.56
47104943--47105019	17	4.4	17	70	20	59	46	15	1	36	1.54
47104933--47105019	29	3.1	28	77	12	99	47	17	1	34	1.55
47104897--47105075	50	3.5	50	77	6	205	43	17	3	36	1.66
47104951--47105118	25	6.5	25	70	17	112	42	16	2	38	1.63
47104897--47105104	104	2.0	104	97	0	389	42	16	3	37	1.65
47105047--47105118	17	4.2	17	72	13	58	44	13	1	40	1.53
47105624--47105763	43	3.3	43	86	0	199	27	20	28	23	1.99
47126695--47126849	41	3.8	41	88	0	202	27	27	20	25	1.99
47128832--47128856	13	1.9	13	100	0	50	68	24	0	8	1.16
47129638--47129847	91	2.3	91	98	0	402	26	8	20	44	1.79
47130893--47130995	42	2.5	42	81	7	122	20	19	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47131202--47131297	36	2.7	36	91	1	149	28	8	20	42	1.81
47135221--47135310	48	1.9	49	84	13	127	40	3	4	52	1.38
47144659--47144719	28	2.2	28	93	0	113	45	6	16	31	1.73
47145619--47145668	3	16.7	3	100	0	100	34	0	0	66	0.92
47147115--47147157	21	2.0	21	90	0	68	46	6	6	39	1.58
47147783--47147821	21	1.9	20	89	5	60	28	2	7	61	1.37
47148112--47148138	2	13.5	2	100	0	54	51	0	0	48	1.00
47148185--47148250	19	3.4	19	68	17	55	34	1	3	60	1.21
47150705--47150729	2	12.5	2	100	0	50	48	0	0	52	1.00
47150705--47150757	16	3.2	17	82	10	56	37	5	1	54	1.35
47156302--47156510	110	1.9	110	93	0	364	33	20	11	34	1.89
47164713--47164758	25	1.9	25	86	8	69	39	2	2	56	1.24
47164718--47164774	27	2.2	26	84	9	71	35	1	3	59	1.25
47165077--47165119	5	8.4	5	87	12	61	18	2	0	79	0.85
47165174--47165217	20	2.2	20	91	0	70	25	11	2	61	1.41
47179967--47180057	43	2.1	44	87	2	130	25	19	27	27	1.99
47180076--47180547	169	2.8	168	91	1	746	29	16	27	26	1.97
47180338--47180464	51	2.5	51	78	0	137	25	19	25	29	1.99
47180654--47180776	44	2.8	44	81	6	151	34	17	18	28	1.94
47183300--47183330	15	2.1	15	100	0	62	38	6	32	22	1.80
47187557--47187585	15	1.9	15	100	0	58	41	6	31	20	1.79
47197125--47197244	41	2.9	41	86	2	161	32	24	19	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47200792--47200827	18	1.9	19	88	5	56	25	2	8	63	1.36
47201712--47201777	31	2.1	31	97	0	123	24	19	27	28	1.99
47202555--47202594	20	2.1	19	90	4	62	22	27	0	50	1.50
47206470--47206553	42	2.0	42	85	2	114	27	19	21	32	1.97
47206541--47206789	78	3.2	78	83	3	295	28	23	18	28	1.98
47206541--47206789	39	6.4	39	72	9	195	28	23	18	28	1.98
47214869--47214930	31	2.0	31	81	6	72	43	9	19	27	1.82
47216048--47216115	12	5.8	12	69	10	52	57	0	39	2	1.14
47216074--47216119	24	1.9	24	86	8	67	52	0	43	4	1.21
47218952--47218984	15	2.2	15	94	0	57	27	12	30	30	1.92
47223647--47223693	3	16.0	3	85	12	62	34	2	0	63	1.06
47223854--47223902	3	16.3	3	100	0	98	32	0	0	67	0.91
47224252--47224293	22	2.0	20	86	9	57	35	2	4	57	1.33
47224572--47224879	109	2.8	111	90	2	464	29	16	20	33	1.95
47227293--47227352	30	2.0	31	86	3	86	41	0	36	21	1.54
47227954--47227986	15	2.2	15	100	0	66	51	9	21	18	1.73
47237357--47237389	15	2.2	15	94	0	57	27	12	30	30	1.92
47238077--47238102	12	2.2	12	100	0	52	11	23	23	42	1.86
47245737--47245761	9	2.8	9	100	0	50	32	36	0	32	1.58
47250051--47250121	6	11.8	6	70	5	54	5	18	4	71	1.22
47250067--47250127	12	5.1	12	78	7	61	6	16	6	70	1.30
47250067--47250121	18	3.1	18	82	10	76	5	16	5	72	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47252889--47252955	17	3.7	17	74	14	53	34	41	1	22	1.63
47252883--47252980	38	2.6	38	91	0	160	34	40	2	22	1.66
47254145--47254248	7	14.4	7	69	11	59	33	48	3	14	1.62
47254139--47254253	37	3.1	36	90	7	178	35	45	3	15	1.64
47254801--47255042	41	5.9	41	82	2	245	31	26	19	22	1.98
47256137--47256207	31	2.2	31	80	9	81	50	0	0	49	1.00
47263484--47263547	26	2.5	26	97	0	119	32	12	10	43	1.77
47270768--47270811	23	1.9	23	85	0	61	31	4	6	56	1.46
47283211--47283350	50	2.8	50	90	2	210	27	25	23	23	2.00
47283420--47283685	50	5.3	50	67	9	184	30	18	24	27	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226